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MultiQC: Summarize analysis results for multiple tools and samples in a single report
Philip Ewels, Måns Magnusson, Sverker Lundin and Max Käller
Bioinformatics (2016)
doi: 10.1093/bioinformatics/btw354
PMID: 27312411

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About MultiQC

This report was generated using MultiQC, version 1.29

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MultiQC is published in Bioinformatics:

MultiQC: Summarize analysis results for multiple tools and samples in a single report
Philip Ewels, Måns Magnusson, Sverker Lundin and Max Käller
Bioinformatics (2016)
doi: 10.1093/bioinformatics/btw354
PMID: 27312411

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Report generated on 2025-06-20, 14:34 EDT based on data in: /lustre07/scratch/karencgs/Cannabis_sativa/fastpReports

General Statistics

Showing ¹³⁰/₁₃₀ rows and ⁵/₇ columns.

Sample Name	% Duplication	% > Q30	Mb Q30 bases	Reads After Filtering	GC content	% PF	% Adapter
SRR192369_1	39.9%	95.6%	4614.2Mb	65.3M	50.1%	94.3%	9.0%
SRR192370_1	46.5%	96.3%	4781.0Mb	66.5M	47.7%	97.2%	2.1%
SRR192371_1	32.2%	96.8%	4813.1Mb	67.1M	45.8%	95.4%	8.3%
SRR192372_1	25.3%	96.9%	5108.5Mb	70.9M	44.8%	96.3%	4.6%
SRR192373_1	51.6%	97.3%	4349.3Mb	60.0M	50.7%	96.9%	4.1%
SRR306861	60.1%	95.4%	1045.7Mb	31.3M	45.2%	96.1%
SRR306862	64.2%	95.6%	1079.6Mb	32.3M	45.3%	95.6%
SRR306863	61.8%	97.3%	878.3Mb	25.8M	46.0%	98.2%
SRR306864	70.0%	96.7%	1008.8Mb	29.8M	44.0%	93.2%	5.1%
SRR306865	71.1%	96.7%	996.3Mb	29.5M	44.4%	92.3%	6.0%
SRR306866	71.5%	96.1%	1036.6Mb	30.9M	47.9%	95.2%	2.7%
SRR306867	65.9%	95.7%	939.8Mb	28.1M	48.0%	94.2%	1.9%
SRR306868	59.5%	95.6%	1085.8Mb	32.5M	47.2%	94.4%	1.6%
SRR306869	57.4%	92.5%	888.8Mb	27.5M	47.2%	93.2%
SRR306870	60.9%	94.8%	935.4Mb	28.3M	45.8%	94.3%
SRR306871	76.3%	95.9%	892.2Mb	26.6M	49.5%	93.9%	1.1%
SRR306872	82.1%	96.0%	900.3Mb	26.9M	50.1%	94.4%	0.8%
SRR306874	70.9%	95.3%	1011.8Mb	30.4M	46.9%	93.7%	0.8%
SRR306875	71.3%	96.0%	978.3Mb	29.2M	48.5%	95.2%	0.5%
SRR306877	65.6%	97.0%	901.3Mb	26.6M	42.5%	96.8%
SRR306884	73.7%	94.8%	1023.1Mb	30.9M	47.1%	95.6%	1.0%
SRR306885	71.5%	94.6%	1050.9Mb	31.8M	45.2%	96.0%	0.4%
SRR306886	82.3%	96.6%	857.1Mb	25.4M	44.6%	97.6%	0.4%
SRR351932	56.9%	100.0%	339.6Mb	8.9M	43.6%	99.9%	0.2%
SRR351933	50.7%	100.0%	875.5Mb	9.2M	43.4%	100.0%
SRR352195	56.4%	100.0%	3555.1Mb	37.8M	43.6%	100.0%	8.7%
SRR352196	68.7%	100.0%	3540.9Mb	37.4M	44.4%	99.7%	1.4%
SRR352198	61.7%	100.0%	5132.5Mb	54.0M	43.5%	100.0%
SRR352200	64.9%	100.0%	5277.3Mb	55.6M	44.3%	100.0%	1.3%
SRR352201	58.3%	100.0%	5686.3Mb	60.2M	43.7%	99.7%	3.4%
SRR352202	62.3%	100.0%	3485.3Mb	37.3M	45.0%	99.9%	16.0%
SRR10600874_1	31.0%	94.6%	6213.0Mb	49.1M	49.0%	94.6%	0.2%
SRR10600875_1	33.6%	95.2%	10756.8Mb	83.9M	48.9%	94.8%	0.2%
SRR10600877_1	44.7%	92.6%	7682.2Mb	65.5M	53.3%	93.3%	0.2%
SRR10600878_1	26.3%	95.6%	8091.6Mb	62.6M	46.2%	94.1%	0.1%
SRR10600879_1	37.5%	95.5%	10754.3Mb	84.2M	48.2%	94.3%	0.2%
SRR10600880_1	29.9%	95.6%	7778.3Mb	60.4M	47.2%	93.7%	0.2%
SRR10600881_1	28.1%	95.7%	4938.2Mb	38.4M	47.3%	94.4%	0.2%
SRR10600882_1	24.6%	95.5%	8426.2Mb	65.3M	45.8%	93.0%	0.1%
SRR10600883_1	32.5%	95.5%	11325.0Mb	88.2M	46.3%	93.6%	0.2%
SRR10600884_1	35.1%	96.4%	16077.1Mb	122.9M	45.4%	94.0%	0.2%
SRR10600885_1	46.1%	96.5%	18131.2Mb	138.6M	46.0%	95.2%	0.3%
SRR10600888_1	43.6%	95.3%	10456.5Mb	82.7M	51.5%	95.4%	0.2%
SRR10600889_1	17.3%	94.4%	5070.1Mb	40.7M	46.2%	93.4%	0.3%
SRR10600890_1	38.0%	95.5%	6106.7Mb	47.5M	49.8%	91.3%	0.1%
SRR10600892_1	47.5%	96.1%	15480.6Mb	119.8M	49.6%	94.4%	0.2%
SRR10600893_1	33.4%	95.4%	18784.7Mb	146.3M	47.7%	90.3%	0.1%
SRR10600894_1	39.2%	94.4%	14839.9Mb	119.3M	50.7%	94.5%	0.2%
SRR10600896_1	29.8%	94.4%	18348.9Mb	146.7M	48.2%	93.5%	0.2%
SRR10600899_1	29.2%	94.7%	7768.5Mb	60.9M	48.8%	93.7%	0.1%
SRR10600900_1	31.8%	94.4%	44598.8Mb	357.7M	47.0%	93.1%	0.2%
SRR10600901_1	24.7%	94.7%	4107.7Mb	32.8M	48.5%	94.3%	0.2%
SRR10600902_1	39.3%	95.6%	13381.3Mb	102.7M	49.8%	93.2%	0.1%
SRR10600903_1	45.1%	95.7%	12728.9Mb	98.9M	50.4%	94.1%	0.2%
SRR10600904_1	43.6%	95.7%	12024.0Mb	92.1M	50.1%	94.2%	0.1%
SRR10600905_1	37.5%	95.7%	17078.6Mb	131.1M	48.9%	93.5%	0.1%
SRR10600906_1	35.3%	95.8%	6439.7Mb	49.5M	49.5%	93.5%	0.1%
SRR10600907_1	33.5%	95.1%	7317.7Mb	57.3M	49.7%	94.9%	0.2%
SRR10600908_1	33.2%	94.8%	6699.3Mb	52.4M	49.7%	94.2%	0.1%
SRR10600909_1	39.3%	95.6%	13262.2Mb	102.0M	48.9%	93.0%	0.1%
SRR10600910_1	29.3%	94.6%	8854.3Mb	69.8M	48.5%	94.0%	0.1%
SRR10600911_1	40.5%	95.8%	10753.3Mb	82.3M	50.0%	93.9%	0.1%
SRR10600912_1	32.0%	95.0%	7915.8Mb	61.7M	49.1%	94.6%	0.1%
SRR10600913_1	32.3%	95.0%	7640.3Mb	59.8M	49.1%	94.7%	0.2%
SRR10600914_1	37.6%	96.0%	11300.1Mb	86.8M	48.9%	94.2%	0.2%
SRR10600915_1	28.9%	95.2%	14753.6Mb	115.0M	47.5%	92.5%	0.1%
SRR10600916_1	38.5%	95.5%	7606.6Mb	58.6M	49.9%	93.2%	0.1%
SRR10600917_1	34.3%	95.1%	14381.5Mb	111.9M	49.1%	92.5%	0.1%
SRR10600918_1	42.0%	96.5%	13193.3Mb	100.9M	47.4%	95.8%	0.2%
SRR10600919_1	42.3%	95.8%	14458.7Mb	111.2M	49.9%	94.2%	0.1%
SRR10600920_1	30.6%	95.0%	9725.4Mb	76.2M	48.7%	94.2%	0.2%
SRR10600921_1	38.3%	96.0%	11725.9Mb	90.0M	49.3%	94.2%	0.1%
SRR10600922_1	36.4%	95.6%	4899.3Mb	37.7M	49.9%	92.9%	0.1%
SRR10600923_1	36.8%	95.6%	8275.0Mb	63.5M	49.3%	93.3%	0.1%
SRR10600924_1	48.0%	95.6%	22241.4Mb	170.7M	50.4%	93.2%	0.1%
SRR10600925_1	35.0%	95.8%	7680.6Mb	59.1M	49.6%	93.9%	0.1%
SRR10600926_1	42.5%	95.7%	19221.6Mb	148.4M	49.5%	92.7%	0.1%
SRR10600927_1	34.3%	95.8%	11300.5Mb	86.9M	48.2%	93.9%	0.1%
SRR10600928_1	35.2%	95.0%	8201.0Mb	64.2M	49.9%	95.0%	0.1%
SRR10600929_1	43.8%	95.5%	7450.3Mb	58.3M	51.8%	95.8%	0.2%
SRR10600930_1	52.3%	96.3%	9946.9Mb	76.6M	51.8%	95.5%	0.2%
SRR10600931_1	35.2%	94.9%	8644.5Mb	68.4M	49.7%	94.8%	0.2%
SRR10600932_1	34.9%	95.8%	8009.7Mb	61.7M	48.1%	93.7%	0.2%
SRR10600933_1	50.8%	95.2%	10854.5Mb	85.7M	52.4%	95.4%	0.2%
SRR10600934_1	48.2%	96.1%	12254.6Mb	94.2M	52.4%	95.4%	0.2%
SRR10600935_1	27.2%	94.8%	7699.9Mb	60.3M	48.1%	94.2%	0.1%
SRR10600936_1	28.8%	95.0%	6850.2Mb	53.7M	48.3%	94.7%	0.2%
SRR10600937_1	34.7%	95.2%	9004.3Mb	71.2M	49.3%	95.3%	0.2%
SRR10600938_1	27.4%	95.0%	6818.3Mb	53.5M	47.9%	94.2%	0.2%
SRR10600939_1	28.5%	95.2%	8013.5Mb	62.6M	48.1%	94.9%	0.2%
SRR10600940_1	34.6%	95.9%	7164.5Mb	55.2M	49.1%	94.3%	0.2%
SRR10600941_1	26.2%	94.5%	8830.9Mb	69.8M	47.4%	93.9%	0.1%
SRR10600942_1	30.2%	95.1%	8541.7Mb	66.8M	48.1%	94.5%	0.1%
SRR10600943_1	26.7%	95.3%	5533.6Mb	43.4M	47.8%	94.8%	0.2%
SRR10600944_1	31.6%	95.0%	8672.8Mb	68.2M	49.1%	94.6%	0.2%
SRR28955708_1	26.0%	100.0%	5957.9Mb	40.4M	43.2%	100.0%	17.1%
SRR28955709_1	24.0%	100.0%	7963.6Mb	54.8M	44.2%	100.0%	26.1%
SRR28955710_1	26.3%	100.0%	7536.7Mb	51.4M	43.6%	100.0%	20.4%
SRR29474897_1	33.0%	92.7%	8087.9Mb	58.8M	45.0%	98.2%	1.4%
SRR29474898_1	26.0%	93.0%	8097.9Mb	58.7M	44.5%	98.4%	1.6%
SRR29474899_1	29.1%	93.1%	7926.0Mb	57.3M	44.6%	98.5%	1.3%
SRR29474900_1	31.3%	92.8%	8212.1Mb	59.6M	44.8%	98.4%	1.3%
SRR29474901_1	60.8%	93.1%	8274.7Mb	59.9M	46.0%	98.5%	1.4%
SRR29474902_1	46.3%	93.1%	8023.0Mb	58.0M	44.6%	98.5%	1.1%
SRR29474903_1	41.2%	92.5%	8011.0Mb	58.3M	45.1%	98.3%	1.4%
SRR29474904_1	53.0%	93.0%	7503.1Mb	54.4M	45.2%	98.1%	1.1%
SRR29474905_1	25.8%	93.3%	8149.7Mb	58.8M	44.3%	98.5%	2.1%
SRR29474906_1	28.5%	93.2%	8257.9Mb	59.6M	44.7%	98.6%	1.5%
SRR29474907_1	30.9%	93.2%	7836.4Mb	56.7M	44.6%	98.3%	1.5%
SRR29474908_1	25.7%	93.2%	8044.4Mb	58.1M	44.5%	98.6%	1.6%
SRR29474909_1	25.6%	92.5%	8081.3Mb	58.9M	44.6%	98.3%	1.3%
SRR29474910_1	53.8%	93.5%	7840.4Mb	56.5M	44.8%	98.4%	2.0%
SRR29474911_1	28.5%	93.4%	8058.4Mb	58.2M	44.1%	98.6%	2.6%
SRR29474912_1	30.8%	93.2%	7995.0Mb	57.7M	44.6%	98.6%	1.1%
SRR29474913_1	31.9%	93.2%	8043.1Mb	58.1M	44.2%	98.5%	1.7%
SRR29474914_1	36.7%	93.3%	7286.0Mb	52.6M	44.3%	98.6%	1.8%
SRR29474915_1	24.4%	92.6%	8903.7Mb	64.9M	44.4%	97.9%	1.7%
SRR29474916_1	24.4%	92.9%	7790.5Mb	56.5M	44.3%	98.4%	1.6%
SRR33595210_1	32.0%	96.5%	6579.2Mb	46.6M	44.2%	99.7%	1.9%
SRR33595211_1	31.1%	97.1%	7225.9Mb	50.6M	43.6%	99.8%	1.8%
SRR33595212_1	29.8%	97.2%	7900.0Mb	55.3M	43.6%	99.8%	1.7%
SRR33595213_1	28.4%	97.2%	6867.2Mb	48.1M	43.5%	99.8%	2.3%
SRR33595214_1	31.1%	97.1%	6737.0Mb	47.4M	43.5%	99.8%	2.3%
SRR33595215_1	25.8%	97.0%	5965.2Mb	41.9M	43.6%	99.8%	2.1%
SRR33595216_1	29.3%	96.9%	7509.2Mb	52.8M	43.3%	99.8%	2.1%
SRR33595217_1	34.1%	96.9%	7080.6Mb	49.8M	43.6%	99.8%	1.9%
SRR33595218_1	35.5%	96.6%	7088.1Mb	50.0M	44.4%	99.7%	1.5%
SRR33595219_1	34.4%	97.0%	7546.6Mb	53.0M	44.4%	99.8%	1.9%
SRR33595220_1	29.4%	96.9%	7011.0Mb	49.3M	43.6%	99.8%	1.7%
SRR33595221_1	28.9%	97.1%	7878.6Mb	55.2M	44.0%	99.8%	1.8%

Uncheck the tick box to hide columns. Click and drag the handle on the left to change order. Table ID: general_stats_table_table

Sort	Group	Column	Description	ID	Scale
\|\|	fastp	% Duplication	Duplication rate before filtering	`fastp-pct_duplication`
\|\|	fastp	% > Q30	Percentage of reads > Q30 after filtering	`fastp-after_filtering_q30_rate`
\|\|	fastp	Mb Q30 bases	Bases > Q30 after filtering (millions)	`fastp-after_filtering_q30_bases`	base_count
\|\|	fastp	Reads After Filtering	Total reads after filtering (millions)	`fastp-filtering_result_passed_filter_reads`	read_count
\|\|	fastp	GC content	GC content after filtering	`fastp-after_filtering_gc_content`
\|\|	fastp	% PF	Percent reads passing filter	`fastp-pct_surviving`
\|\|	fastp	% Adapter	Percentage adapter-trimmed reads	`fastp-pct_adapter`

fastp

Version:


                      
                        0.23.4

All-in-one FASTQ preprocessor (QC, adapters, trimming, filtering, splitting...).URL: https://github.com/OpenGene/fastpDOI: 10.1093/bioinformatics/bty560

Fastp goes through fastq files in a folder and perform a series of quality control and filtering. Quality control and reporting are displayed both before and after filtering, allowing for a clear depiction of the consequences of the filtering process. Notably, the latter can be conducted on a variety of parameters including quality scores, length, as well as the presence of adapters, polyG, or polyX tailing.

Filtered Reads

Filtering statistics of sampled reads.

Created with MultiQC

Insert Sizes

Insert size estimation of sampled reads.

Created with MultiQC

Sequence Quality

Average sequencing quality over each base of all reads.

Created with MultiQC

GC Content

Average GC content over each base of all reads.

Created with MultiQC

N content

Average N content over each base of all reads.

Created with MultiQC

Software Versions

Software Versions lists versions of software tools extracted from file contents.

Software	Version
fastp	`0.23.4`

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fastp

Filtered Reads

Insert Sizes

Sequence Quality

GC Content

N content

Software Versions

v1.29

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